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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $species_info = array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ) $local_species = 'aox' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ), 'sidebar' => 'gene_family_sidebar', 'navigation_bar_info' => array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ), 'allowed_extra_sequences_types' => array( 'aa' => 'Protein', 'dna' => 'DNA' ), 'allowed_editing_methods' => array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ), 'allowed_tree_programs' => array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ), 'allowed_msa_programs' => array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ), 'allowed_number_blasthits' => array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ), 'gf_genes' => array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ), 'gf_id' => 'HOM05D001058', 'gf_types_information' => array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ), 'gf_types_configuration' => array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ), 'all_species' => array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ), 'allow_async_use' => true, 'sidebar_information' => array( 'type' => 'gf', 'id' => 'HOM05D001058' ), 'data_identifier' => 'HOM05D001058', 'data_type' => 'gf_id' ) $sidebar_info = array( 'gf_id' => 'HOM05D001058', 'msa_exists' => array( 'full' => true, 'edited' => true ), 'tree_exists' => true, 'num_genes' => '576', 'num_species' => '98' ) $sidebar = 'gene_family_sidebar' $navigation_bar_info = array( 'num_colinearity_runs' => (int) 1, 'num_colinearity_with_dating_runs' => (int) 0, 'num_functional_clusters_runs' => (int) 6, 'has_pan_genomes' => false ) $allowed_extra_sequences_types = array( 'aa' => 'Protein', 'dna' => 'DNA' ) $allowed_editing_methods = array( 'column' => 'Positions only', 'row' => 'Genes only', 'column_row' => 'Positions and Genes', 'none' => 'No editing' ) $allowed_tree_programs = array( 'fasttree' => 'FastTree', 'iqtree' => 'IQ-TREE (includes model testing)', 'raxml' => 'RAxML', 'phyml' => 'PhyML' ) $allowed_msa_programs = array( 'muscle' => 'MUSCLE', 'mafft' => 'MAFFT' ) $allowed_number_blasthits = array( (int) 0 => 'all', (int) 1 => (int) 20, (int) 2 => (int) 10, (int) 3 => (int) 5, (int) 4 => (int) 1 ) $gf_genes = array( 'A01p16370' => 'bna', 'A01p40210' => 'bna', 'A02p43230' => 'bna', 'A06p30930' => 'bna', 'A09p67050' => 'bna', 'Aa31LG1G11580' => 'aar', 'Aa31LG1G17660' => 'aar', 'Aa31LG7G10560' => 'aar', 'Actinidia00274' => 'ach', 'Actinidia01023' => 'ach', 'Actinidia07774' => 'ach', 'Actinidia12634' => 'ach', 'Actinidia21623' => 'ach', 'Actinidia28052' => 'ach', 'Actinidia29254' => 'ach', 'Actinidia31759' => 'ach', 'Ah.01g022250' => 'amhyb', 'Ah.02g115810' => 'amhyb', 'Ah.02g115860' => 'amhyb', 'AL1G10050' => 'aly', 'AL1G40380' => 'aly', 'AL7G28040' => 'aly', 'AL8G41560' => 'aly', 'AL8G41590' => 'aly', 'Aqoxy2G01519' => 'aox', 'Aqoxy3G02579' => 'aox', 'arahy.Tifrunner.gnm1.ann1.0PNK8Q' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.3K95UD' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.7X34R9' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.B8GJCF' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.EJ8M4M' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.G8P8D1' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.I6INWT' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.SA3IBZ' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3461I' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.T3HEFR' => 'arhy', 'arahy.Tifrunner.gnm1.ann1.Z8Z8QH' => 'arhy', 'AT1G02170' => 'ath', 'AT4G25110' => 'ath', 'AT5G64240' => 'ath', 'ATR0665G128' => 'atr', 'ATR0665G500' => 'atr', 'ATR0782G225' => 'atr', 'Atru.chr5.84' => 'acertr', 'Atru.chr6.1141' => 'acertr', 'Atru.chr6.1142' => 'acertr', 'Atru.chr6.1157' => 'acertr', 'Atru.chr6.1969' => 'acertr', 'AUR62010146' => 'cqu', 'AUR62010470' => 'cqu', 'AUR62013141' => 'cqu', 'AUR62013777' => 'cqu', 'AUR62023379' => 'cqu', 'AUR62030429' => 'cqu', 'BcaB02g09776' => 'bca', 'BcaB07g29731' => 'bca', 'BcaC01g02679' => 'bca', 'BcaC03g18252' => 'bca', 'BcaC07g42075' => 'bca', 'BcaC09g50807' => 'bca', 'BcaNung04001' => 'bca', 'BolC1t01983H' => 'bol', 'BolC2t12394H' => 'bol', 'BolC3t18464H' => 'bol', 'BolC8t52657H' => 'bol', 'BraA01t01592Z' => 'bra', 'BraA01t04058Z' => 'bra', 'BraA02t09244Z' => 'bra', 'BraA06t26032Z' => 'bra', 'BraA09t42039Z' => 'bra', 'C01p20520' => 'bna', 'C02p07130' => 'bna', 'C02p63250' => 'bna', 'C03p62040' => 'bna', 'C08p51310' => 'bna', 'CAN.G1273.22' => 'can', 'CAN.G271.4' => 'can', 'CAN.G523.56' => 'can', 'CAN.G523.57' => 'can', 'CAN.G523.58' => 'can', 'CAN.G523.59' => 'can', 'CAN.G523.60' => 'can', 'CAN.G523.61' => 'can', 'CAN.G598.10' => 'can', 'CAN.G598.9' => 'can', 'CAN.G756.27' => 'can', 'CAN.G77.16' => 'can', 'CANSAT11G1769' => 'cansat', 'CANSAT11G2165' => 'cansat', 'CANSAT25G3025' => 'cansat', 'CANSAT56G0061' => 'cansat', 'CARHR000150' => 'chi', 'CARHR232500' => 'chi', 'CARHR258190' => 'chi', 'Carub.0001s0005' => 'cru', 'Carub.0007s1592' => 'cru', 'Carub.0008s2503' => 'cru', 'Ca_00139_v3' => 'car', 'Ca_00140_v3' => 'car', 'Ca_07446_v3' => 'car', 'Ca_07447_v3' => 'car', 'Ca_18359_v3' => 'car', 'CBR_g24336' => 'cbr', 'CBR_g24422' => 'cbr', 'CBR_g45219' => 'cbr', 'Cc02_g04920' => 'ccan', 'Cc02_g21390' => 'ccan', 'Cc02_g21400' => 'ccan', 'Cc02_g21410' => 'ccan', 'Cc02_g21420' => 'ccan', 'Cc02_g25470' => 'ccan', 'CDE02G3747' => 'cde', 'CDE03G0477' => 'cde', 'CDE06G2752' => 'cde', 'CDE10G1067' => 'cde', 'CDE11G1098' => 'cde', 'Cfa005640' => 'cfa', 'Cfa011033' => 'cfa', 'Cfa013611' => 'cfa', 'Cfa022059' => 'cfa', 'Cfa026555' => 'cfa', 'Ciclev10001596m.g' => 'ccl', 'Ciclev10028845m.g' => 'ccl', 'Ciclev10029334m.g' => 'ccl', 'Ciclev10030117m.g' => 'ccl', 'Ciclev10030178m.g' => 'ccl', 'Ciclev10031874m.g' => 'ccl', 'CiPaw.05G034600' => 'cil', 'CiPaw.05G034700' => 'cil', 'CiPaw.06G154000' => 'cil', 'CiPaw.06G154100' => 'cil', 'CiPaw.06G154300' => 'cil', 'CiPaw.08G043300' => 'cil', 'CiPaw.14G017600' => 'cil', 'ClCG00G001680' => 'cla', 'ClCG05G002960' => 'cla', 'ClCG07G017230' => 'cla', 'ClCG09G015500' => 'cla', 'COL.COLO4_05417' => 'col', 'COL.COLO4_07840' => 'col', 'COL.COLO4_34108' => 'col', 'COL.COLO4_37297' => 'col', 'COL.COLO4_37298' => 'col', 'Cpa.g.sc13.214' => 'cpa', 'Cpa.g.sc166.50' => 'cpa', 'Cpa.g.sc42.39' => 'cpa', 'Cpa.g.sc42.40' => 'cpa', 'Cpa.g.sc52.79' => 'cpa', 'Cre12.g517451' => 'cre', 'CsaV3_3G010530' => 'csa', 'CsaV3_3G010540' => 'csa', 'CsaV3_4G004430' => 'csa', 'CsaV3_7G006570' => 'csa', 'CSS0009373' => 'camsi', 'CSS0016475' => 'camsi', 'CSS0018823' => 'camsi', 'CSS0031794' => 'camsi', 'CSS0036695' => 'camsi', 'CSS0040720' => 'camsi', 'CSS0045069' => 'camsi', 'DCAR_004003' => 'dca', 'DCAR_015794' => 'dca', 'DCAR_018068' => 'dca', 'DCAR_021863' => 'dca', 'Dinv09025' => 'din', 'Dinv09026' => 'din', 'Dinv20967' => 'din', 'Dinv21040' => 'din', 'Dinv21883' => 'din', 'Dinv24182' => 'din', 'Dinv24183' => 'din', 'Dinv28977' => 'din', 'Dinv34519' => 'din', 'Dinv34521' => 'din', 'Dinv43595' => 'din', 'Duzib052G0216' => 'dzi', 'Duzib052G0723' => 'dzi', 'Duzib052G0884' => 'dzi', 'Duzib052G1092' => 'dzi', 'Duzib084G1255' => 'dzi', 'Duzib132G0292' => 'dzi', 'Duzib132G0645' => 'dzi', 'Duzib138G0222' => 'dzi', 'Duzib248G1630' => 'dzi', 'ECA234G0313' => 'eca', 'ECA234G3481' => 'eca', 'ECA234G4293' => 'eca', 'ECA236G1437' => 'eca', 'ECA236G4016' => 'eca', 'ECA240G3861' => 'eca', 'ECA247G3896' => 'eca', 'ECA248G3237' => 'eca', 'EL10Ac1g00729' => 'bvu', 'EL10Ac5g12573' => 'bvu', 'EL10Ac9g21490' => 'bvu', 'Eucgr.A02943' => 'egr', 'Eucgr.A02948' => 'egr', 'Eucgr.E01662' => 'egr', 'Eucgr.I02658' => 'egr', 'Eucgr.I02659' => 'egr', 'FAN01G0328' => 'fan', 'FAN01G0880' => 'fan', 'FAN03G0635' => 'fan', 'FAN03G2398' => 'fan', 'FAN04G0236' => 'fan', 'FAN06G2301' => 'fan', 'FAN06G2481' => 'fan', 'FAN10G1479' => 'fan', 'FAN10G2843' => 'fan', 'FAN10G3308' => 'fan', 'FAN10G3480' => 'fan', 'FAN11G0452' => 'fan', 'FAN16G1859' => 'fan', 'FAN18G1021' => 'fan', 'FAN21G2071' => 'fan', 'FAN25G2790' => 'fan', 'FvH4_3g07290' => 'fve', 'FvH4_5g28030' => 'fve', 'FvH4_7g08970' => 'fve', 'FvH4_7g26490' => 'fve', 'Glyma.01G079200' => 'gma', 'Glyma.01G094900' => 'gma', 'Glyma.08G071600' => 'gma', 'Glyma.08G071700' => 'gma', 'Glyma.08G178500' => 'gma', 'Glyma.08G340900' => 'gma', 'Glyma.13G044200' => 'gma', 'Glyma.13G044300' => 'gma', 'Glyma.15G054000' => 'gma', 'Glyma.15G054100' => 'gma', 'Gohir.A01G014800' => 'ghi', 'Gohir.A01G014900' => 'ghi', 'Gohir.A03G174400' => 'ghi', 'Gohir.A03G174800' => 'ghi', 'Gohir.A08G140300' => 'ghi', 'Gohir.A12G195400' => 'ghi', 'Gohir.A13G067600' => 'ghi', 'Gohir.D01G010500' => 'ghi', 'Gohir.D01G010600' => 'ghi', 'Gohir.D02G197600' => 'ghi', 'Gohir.D02G198100' => 'ghi', 'Gohir.D08G161300' => 'ghi', 'Gohir.D12G197800' => 'ghi', 'Gohir.D13G054100' => 'ghi', 'Gorai.002G012600' => 'gra', 'Gorai.002G012700' => 'gra', 'Gorai.004G167600' => 'gra', 'Gorai.005G220900' => 'gra', 'Gorai.005G221400' => 'gra', 'Gorai.008G212300' => 'gra', 'Gorai.013G060900' => 'gra', 'GSVIVG01013841001' => 'vvi', 'GSVIVG01013843001' => 'vvi', 'GSVIVG01015724001' => 'vvi', 'GSVIVG01018329001' => 'vvi', 'HanXRQChr01g0015521' => 'han', 'HanXRQChr03g0067571' => 'han', 'HanXRQChr09g0252371' => 'han', 'HanXRQChr09g0252381' => 'han', 'HanXRQChr11g0338081' => 'han', 'HanXRQChr11g0338101' => 'han', 'HanXRQChr13g0420781' => 'han', 'HanXRQChr16g0514771' => 'han', 'HanXRQChr16g0520971' => 'han', 'Haze_02892' => 'cav', 'Haze_10620' => 'cav', 'Haze_22234' => 'cav', 'Hma1.2p1_0522F.1_g171710' => 'hma', 'Hma1.2p1_0522F.1_g171720' => 'hma', 'Hma1.2p1_1083F.1_g255220' => 'hma', 'Hma1.2p1_3714F.1_g337370' => 'hma', 'HPP92_009246' => 'vpl', 'HPP92_022507' => 'vpl', 'Hund00069' => 'sun', 'Hund11020' => 'sun', 'Hund17119' => 'sun', 'Lalb_Chr01g0021841' => 'lal', 'Lalb_Chr03g0040911' => 'lal', 'Lalb_Chr15g0090401' => 'lal', 'Lalb_Chr15g0090411' => 'lal', 'Lalb_Chr16g0382751' => 'lal', 'Lalb_Chr20g0123001' => 'lal', 'Lj1A971T65' => 'lonja', 'Lj1g0013976' => 'lja', 'Lj4g0000239' => 'lja', 'Lj4g0012366' => 'lja', 'Lj4g0016447' => 'lja', 'Lj5A237T51' => 'lonja', 'Lj5A237T52' => 'lonja', 'Lj5A238T41' => 'lonja', 'Lj5A238T42' => 'lonja', 'Lj5A238T43' => 'lonja', 'Lj5g0012001' => 'lja', 'Lj6g0016106' => 'lja', 'Lj6g0019875' => 'lja', 'Lj9A551T49' => 'lonja', 'Lsat_1_v5_gn_1_83660' => 'lsa', 'Lsat_1_v5_gn_4_38221' => 'lsa', 'Lsat_1_v5_gn_5_108001' => 'lsa', 'Lsat_1_v5_gn_7_81920' => 'lsa', 'Lsat_1_v5_gn_7_81961' => 'lsa', 'Lsat_1_v5_gn_9_116940' => 'lsa', 'Lsat_1_v5_gn_9_116980' => 'lsa', 'Lsat_1_v5_gn_9_117000' => 'lsa', 'Lsat_1_v5_gn_9_58480' => 'lsa', 'Manes.01G273100' => 'mes', 'Manes.06G129200' => 'mes', 'Manes.07G031800' => 'mes', 'Manes.07G031900' => 'mes', 'Manes.07G032100' => 'mes', 'Manes.07G032200' => 'mes', 'Manes.07G032300' => 'mes', 'Manes.07G032400' => 'mes', 'Manes.07G032500' => 'mes', 'Manes.10G105400' => 'mes', 'Manes.10G105501' => 'mes', 'Mapoly0051s0042' => 'mpo', 'MBI02_g35749_MAGBIO' => 'mbi', 'MBI04_g20750_MAGBIO' => 'mbi', 'MCO07G318' => 'mco', 'MD01G1173500' => 'mdo', 'MD02G1221900' => 'mdo', 'MD05G1043500' => 'mdo', 'MD05G1043900' => 'mdo', 'MD05G1044000' => 'mdo', 'MD07G1094600' => 'mdo', 'MD07G1240400' => 'mdo', 'MD07G1240500' => 'mdo', 'MD10G1050900' => 'mdo', 'MD10G1051100' => 'mdo', 'MD10G1051200' => 'mdo', 'Medtr2g008970' => 'mtr', 'Medtr2g008980' => 'mtr', 'Medtr2g008990' => 'mtr', 'Medtr4g094202' => 'mtr', 'Medtr4g094210' => 'mtr', 'Medtr7g451400' => 'mtr', 'MELO3C006275.2' => 'cme', 'MELO3C017623.2' => 'cme', 'MELO3C018636.2' => 'cme', 'Migut.B00600' => 'egut', 'Migut.B00601' => 'egut', 'Migut.B00602' => 'egut', 'Migut.B01499' => 'egut', 'Migut.F00547' => 'egut', 'Migut.N01073' => 'egut', 'MSTRG.16589' => 'ama', 'MSTRG.16590' => 'ama', 'MSTRG.16591' => 'ama', 'MSTRG.27240' => 'ama', 'MSTRG.27802' => 'ama', 'MSTRG.8856' => 'ama', 'Nitab4.5_0000103g0140' => 'nta', 'Nitab4.5_0000375g0310' => 'nta', 'Nitab4.5_0000375g0320' => 'nta', 'Nitab4.5_0000563g0050' => 'nta', 'Nitab4.5_0000863g0190' => 'nta', 'Nitab4.5_0000863g0210' => 'nta', 'Nitab4.5_0001130g0130' => 'nta', 'Nitab4.5_0001619g0050' => 'nta', 'Nitab4.5_0001619g0060' => 'nta', 'Nitab4.5_0002236g0100' => 'nta', 'Nitab4.5_0002236g0110' => 'nta', 'Nitab4.5_0007762g0010' => 'nta', 'Nitab4.5_0007904g0030' => 'nta', 'Nn1g00723' => 'nnu', 'Nn1g00724' => 'nnu', 'Nn5g30084' => 'nnu', 'Nn6g33728' => 'nnu', 'Nn6g33729' => 'nnu', 'Oeu004652.1' => 'oeu', 'Oeu007969.2' => 'oeu', 'Oeu008096.1' => 'oeu', 'Oeu032115.1' => 'oeu', 'Oeu036917.1' => 'oeu', 'Oeu044169.2' => 'oeu', 'Oeu047354.1' => 'oeu', 'Oeu055151.1' => 'oeu', 'Os03g0388900' => 'osa', 'Os03g0389000' => 'osa', 'Os03g0389100' => 'osa', 'Os03g0389400' => 'osa', 'Os03g0389501' => 'osa', 'Os10g0565100' => 'osa', 'Peaxi162Scf00001g00028' => 'pax', 'Peaxi162Scf00073g01928' => 'pax', 'Peaxi162Scf00073g01929' => 'pax', 'Peaxi162Scf00152g00097' => 'pax', 'Peaxi162Scf00167g01119' => 'pax', 'Peaxi162Scf00793g00344' => 'pax', 'PGR042G1848' => 'pgr', 'PGR042G2066' => 'pgr', 'PGR142G0653' => 'pgr', 'PGR142G3904' => 'pgr', 'PGR142G4465' => 'pgr', 'PGSC0003DMG400001723' => 'stu', 'PGSC0003DMG400005245' => 'stu', 'PGSC0003DMG400011659' => 'stu', 'PGSC0003DMG400012553' => 'stu', 'PGSC0003DMG400012554' => 'stu', 'Phvul.002G209900' => 'pvu', 'Phvul.002G210000' => 'pvu', 'Phvul.006G205900' => 'pvu', 'Phvul.006G206000' => 'pvu', 'Phvul.008G138300' => 'pvu', 'Potri.012G112200' => 'ptr', 'Potri.012G112700' => 'ptr', 'Potri.012G113100' => 'ptr', 'Potri.014G052500' => 'ptr', 'Potri.017G052600' => 'ptr', 'Potri.017G052900' => 'ptr', 'Potri.017G053000' => 'ptr', 'Potri.017G053100' => 'ptr', 'Pp3c17_17780' => 'ppa', 'Pp3c24_11630' => 'ppa', 'PRCOL_00006455' => 'pco', 'Prupe.2G118900' => 'ppe', 'Prupe.2G269200' => 'ppe', 'Prupe.2G269300' => 'ppe', 'Prupe.8G059400' => 'ppe', 'Prupe.8G062700' => 'ppe', 'Psat1g216120' => 'psa', 'Psat1g216200' => 'psa', 'Psat1g216240' => 'psa', 'Psat3g153240' => 'psa', 'Psat7g099040' => 'psa', 'PSO063G4778' => 'pso', 'PSO063G4977' => 'pso', 'PSO447G0341' => 'pso', 'QL04p026556' => 'qlo', 'QL04p026565' => 'qlo', 'QL04p026958' => 'qlo', 'QL04p026969' => 'qlo', 'QL09p026836' => 'qlo', 'QL11p021378' => 'qlo', 'QL11p021473' => 'qlo', 'RcHm_v2.0_Chr1g0344331' => 'rch', 'RcHm_v2.0_Chr1g0344461' => 'rch', 'RcHm_v2.0_Chr1g0344571' => 'rch', 'RcHm_v2.0_Chr1g0344661' => 'rch', 'RcHm_v2.0_Chr1g0344751' => 'rch', 'RcHm_v2.0_Chr1g0344811' => 'rch', 'RcHm_v2.0_Chr1g0344881' => 'rch', 'RcHm_v2.0_Chr1g0344901' => 'rch', 'RcHm_v2.0_Chr1g0344911' => 'rch', 'RcHm_v2.0_Chr1g0373091' => 'rch', 'RcHm_v2.0_Chr5g0011711' => 'rch', 'RcHm_v2.0_Chr6g0271771' => 'rch', 'RcHm_v2.0_Chr6g0271791' => 'rch', 'Rhsim01G0142100' => 'rsi', 'Rhsim03G0155700' => 'rsi', 'Rhsim05G0105600' => 'rsi', 'Rhsim05G0105700' => 'rsi', 'Rhsim05G0105800' => 'rsi', 'Rhsim05G0105900' => 'rsi', 'Rhsim09G0187800' => 'rsi', 'Rhsim11G0137100' => 'rsi', 'Sabra12G0081700' => 'sbr', 'Sabra12G0081900' => 'sbr', 'Sabra12G0082100' => 'sbr', 'Sabra12G0082200' => 'sbr', 'Sabra14G0037300' => 'sbr', 'Sabra14G0039400' => 'sbr', 'Sabra17G0039700' => 'sbr', 'Sabra17G0039800' => 'sbr', 'Sabra17G0039900' => 'sbr', 'Sabra17G0040200' => 'sbr', 'Sabra17G0040300' => 'sbr', 'Sabra17G0044500' => 'sbr', 'Sabra17G0044600' => 'sbr', 'Sabra17G0044700' => 'sbr', 'Sabra17G0044900' => 'sbr', 'Sabra17G0045000' => 'sbr', 'Sabra17G0045100' => 'sbr', 'SalBow3G3752' => 'sbo', 'SalBow5G0730' => 'sbo', 'SalBow5G1316' => 'sbo', 'SalBow5G1979' => 'sbo', 'SalBow5G2574' => 'sbo', 'SalBow5G2676' => 'sbo', 'SalBow5G4854' => 'sbo', 'SalBow6G0998' => 'sbo', 'Sc18g0006820' => 'sci', 'Sc23g0004860' => 'sci', 'Sc26g0001710' => 'sci', 'Sed0000013' => 'sed', 'Sed0002004' => 'sed', 'Sed0012360' => 'sed', 'Sed0018568' => 'sed', 'Sed0025099' => 'sed', 'SEGI_34923' => 'sgi', 'SGA_v2.0_scaffold14G07126' => 'sas', 'SGA_v2.0_scaffold340G49344' => 'sas', 'SGA_v2.0_scaffold52G19261' => 'sas', 'SGA_v2.0_scaffold60G20854' => 'sas', 'SMO174G0190' => 'smo', 'SMO278G0007' => 'smo', 'Solyc01g088710.3' => 'sly', 'Solyc01g105300.4' => 'sly', 'Solyc01g105310.3' => 'sly', 'Solyc01g105320.4' => 'sly', 'Solyc03g094160.3' => 'sly', 'Solyc05g052130.3' => 'sly', 'Sopen01g035550' => 'spe', 'Sopen01g047800' => 'spe', 'Sopen01g047810' => 'spe', 'Sopen01g047820' => 'spe', 'Sopen03g025110' => 'spe', 'Sopen05g030670' => 'spe', 'Sp1g00070' => 'spa', 'Sp2g27300' => 'spa', 'Sp7g23100' => 'spa', 'TAR625G0157' => 'tar', 'TAR625G0924' => 'tar', 'TAR625G1029' => 'tar', 'TAR629G3110' => 'tar', 'TAR636G0239' => 'tar', 'THA.LOC104804569' => 'tha', 'THA.LOC104814058' => 'tha', 'THA.LOC104825046' => 'tha', 'Thecc.01G401300' => 'tca', 'Thecc.02G136400' => 'tca', 'Thecc.02G137000' => 'tca', 'Thecc.02G137200' => 'tca', 'Thecc.02G137300' => 'tca', 'Thecc.03G144400' => 'tca', 'Thecc.03G144500' => 'tca', 'Thhalv10004433m.g' => 'esa', 'Thhalv10004470m.g' => 'esa', 'Thhalv10025190m.g' => 'esa', 'TPR.G10192' => 'tpr', 'TPR.G15000' => 'tpr', 'TPR.G15001' => 'tpr', 'TPR.G20548' => 'tpr', 'TPR.G25205' => 'tpr', 'TPR.G25210' => 'tpr', 'TPR.G25233' => 'tpr', 'TPR.G34509' => 'tpr', 'TPR.G34514' => 'tpr', 'TPR.G40267' => 'tpr', 'TPR.G40270' => 'tpr', 'TPR.G40271' => 'tpr', 'TPR.G449' => 'tpr', 'TPR.G937' => 'tpr', 'TWI14G0266' => 'twi', 'TWI14G0711' => 'twi', 'TWI23G0370' => 'twi', 'TWI23G1127' => 'twi', 'TWI59G0240' => 'twi', 'TWI59G0320' => 'twi', 'unitig_22.g5407' => 'ugi', 'unitig_22.g6836' => 'ugi', 'unitig_46.g18756' => 'ugi', 'unitig_578.g15974' => 'ugi', 'unitig_8.g3846' => 'ugi', 'vmacro01829' => 'vma', 'vmacro06858' => 'vma', 'vmacro06859' => 'vma', 'vmacro09942' => 'vma', 'vmacro19939' => 'vma', 'vmacro19940' => 'vma', 'vmacro21071' => 'vma', 'VMungo0251G2667' => 'vmu', 'VMungo0251G2675' => 'vmu', 'VMungo0540G0480' => 'vmu', 'VMungo0540G1168' => 'vmu', 'VMungo1215G1737' => 'vmu', 'VMungo1383G1655' => 'vmu', 'Zm00001eb018900' => 'zma', 'Zm00001eb018910' => 'zma', 'Zm00001eb018930' => 'zma', 'Zm00001eb023930' => 'zma', 'Zm00001eb390830' => 'zma', 'Zm00001eb392450' => 'zma', 'Zm00001eb392460' => 'zma', 'Zm00001eb392470' => 'zma' ) $gf_id = 'HOM05D001058' $gf_types_information = array( 'HOMFAM' => array( 'id' => 'HOMFAM', 'name' => 'Homologous gene family', 'gene_type' => 'coding', 'parent_id' => '', 'ancestry' => 'homology' ), 'ORTHOFAM' => array( 'id' => 'ORTHOFAM', 'name' => 'Orthologous gene family', 'gene_type' => 'coding', 'parent_id' => 'HOMFAM', 'ancestry' => 'orthology' ) ) $gf_types_configuration = array( 'HOMFAM' => array( 'order' => '1', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ), 'ORTHOFAM' => array( 'order' => '2', 'show_parentless_subfamilies' => 'false', 'show_table' => 'true', 'show_orphan' => false ) ) $all_species = array( 'acertr' => array( 'species' => 'acertr', 'common_name' => 'Acer truncatum', 'tax_id' => '47965', 'version' => 'v2.0' ), 'ach' => array( 'species' => 'ach', 'common_name' => 'Actinidia chinensis', 'tax_id' => '3625', 'version' => 'V3.0' ), 'aar' => array( 'species' => 'aar', 'common_name' => 'Aethionema arabicum', 'tax_id' => '228871', 'version' => 'v3.1' ), 'amhyb' => array( 'species' => 'amhyb', 'common_name' => 'Amaranthus hybridus', 'tax_id' => '3565', 'version' => 'v1.0' ), 'atr' => array( 'species' => 'atr', 'common_name' => 'Amborella trichopoda', 'tax_id' => '13333', 'version' => 'JGI v1.0' ), 'aag' => array( 'species' => 'aag', 'common_name' => 'Anthoceros agrestis', 'tax_id' => '41834', 'version' => 'v1.1' ), 'aox' => array( 'species' => 'aox', 'common_name' => 'Aquilegia oxysepala', 'tax_id' => '432649', 'version' => 'v1.0' ), 'aly' => array( 'species' => 'aly', 'common_name' => 'Arabidopsis lyrata', 'tax_id' => '59689', 'version' => 'JGI v2.1' ), 'ath' => array( 'species' => 'ath', 'common_name' => 'Arabidopsis thaliana', 'tax_id' => '3702', 'version' => 'Araport11' ), 'arhy' => array( 'species' => 'arhy', 'common_name' => 'Arachis hypogaea', 'tax_id' => '3818', 'version' => 'v1.0' ), 'ama' => array( 'species' => 'ama', 'common_name' => 'Avicennia marina', 'tax_id' => '82927', 'version' => 'v1.1 20200527' ), 'bvu' => array( 'species' => 'bvu', 'common_name' => 'Beta vulgaris', 'tax_id' => '161934', 'version' => 'EL10_1.0' ), 'bca' => array( 'species' => 'bca', 'common_name' => 'Brassica carinata', 'tax_id' => '52824', 'version' => 'V1.0' ), 'bna' => array( 'species' => 'bna', 'common_name' => 'Brassica napus', 'tax_id' => '3708', 'version' => 'v2.0' ), 'bol' => array( 'species' => 'bol', 'common_name' => 'Brassica oleracea', 'tax_id' => '109376', 'version' => 'v1.0' ), 'bra' => array( 'species' => 'bra', 'common_name' => 'Brassica rapa', 'tax_id' => '3711', 'version' => 'v1.0' ), 'camsi' => array( 'species' => 'camsi', 'common_name' => 'Camellia sinensis var. sinensis', 'tax_id' => '542762', 'version' => 'CSS_ChrLev_20200506' ), 'cansat' => array( 'species' => 'cansat', 'common_name' => 'Cannabis sativa', 'tax_id' => '3483', 'version' => 'cs10' ), 'cru' => array( 'species' => 'cru', 'common_name' => 'Capsella rubella', 'tax_id' => '81985', 'version' => 'JGI v1.1' ), 'can' => array( 'species' => 'can', 'common_name' => 'Capsicum annuum', 'tax_id' => '4072', 'version' => 'Pepper Genome v2.0' ), 'chi' => array( 'species' => 'chi', 'common_name' => 'Cardamine hirsuta', 'tax_id' => '50463', 'version' => 'v1.0' ), 'cpa' => array( 'species' => 'cpa', 'common_name' => 'Carica papaya', 'tax_id' => '3649', 'version' => 'JGI ASGPB0.4' ), 'cfa' => array( 'species' => 'cfa', 'common_name' => 'Carpinus fangiana', 'tax_id' => '176857', 'version' => 'v1.0' ), 'cil' => array( 'species' => 'cil', 'common_name' => 'Carya illinoinensis', 'tax_id' => '32201', 'version' => 'v1.1' ), 'cde' => array( 'species' => 'cde', 'common_name' => 'Ceratophyllum demersum', 'tax_id' => '4428', 'version' => 'v1.0' ), 'cbr' => array( 'species' => 'cbr', 'common_name' => 'Chara braunii', 'tax_id' => '69332', 'version' => 'Cbr1.0' ), 'cqu' => array( 'species' => 'cqu', 'common_name' => 'Chenopodium quinoa', 'tax_id' => '63459', 'version' => 'KAUST v1.0' ), 'cre' => array( 'species' => 'cre', 'common_name' => 'Chlamydomonas reinhardtii', 'tax_id' => '3055', 'version' => 'JGI v5.5' ), 'car' => array( 'species' => 'car', 'common_name' => 'Cicer arietinum L.', 'tax_id' => '3827', 'version' => 'v3.0' ), 'cla' => array( 'species' => 'cla', 'common_name' => 'Citrullus lanatus', 'tax_id' => '3654', 'version' => 'WCG v2.0' ), 'ccl' => array( 'species' => 'ccl', 'common_name' => 'Citrus clementina', 'tax_id' => '85681', 'version' => 'JGI v1.0' ), 'ccan' => array( 'species' => 'ccan', 'common_name' => 'Coffea canephora', 'tax_id' => '49390', 'version' => 'Coffee Genome Hub v1' ), 'col' => array( 'species' => 'col', 'common_name' => 'Corchorus olitorius', 'tax_id' => '93759', 'version' => 'GenBank v1.0' ), 'cav' => array( 'species' => 'cav', 'common_name' => 'Corylus avellana', 'tax_id' => '13451', 'version' => 'v1.0' ), 'cme' => array( 'species' => 'cme', 'common_name' => 'Cucumis melo', 'tax_id' => '3656', 'version' => 'Melonomics v3.6.1' ), 'csa' => array( 'species' => 'csa', 'common_name' => 'Cucumis sativus L.', 'tax_id' => '3659', 'version' => 'v3.0' ), 'dca' => array( 'species' => 'dca', 'common_name' => 'Daucus carota', 'tax_id' => '4039', 'version' => 'JGI v2.0' ), 'din' => array( 'species' => 'din', 'common_name' => 'Davidia involucrata', 'tax_id' => '16924', 'version' => 'v1.0' ), 'dzi' => array( 'species' => 'dzi', 'common_name' => 'Durio zibethinus', 'tax_id' => '66656', 'version' => 'Duzib1.0' ), 'eca' => array( 'species' => 'eca', 'common_name' => 'Erigeron canadensis', 'tax_id' => '72917', 'version' => 'V1.0' ), 'egut' => array( 'species' => 'egut', 'common_name' => 'Erythranthe guttata', 'tax_id' => '4155', 'version' => 'v2.0' ), 'egr' => array( 'species' => 'egr', 'common_name' => 'Eucalyptus grandis', 'tax_id' => '71139', 'version' => 'v2.0' ), 'esa' => array( 'species' => 'esa', 'common_name' => 'Eutrema salsugineum', 'tax_id' => '72664', 'version' => 'v1.0' ), 'fve' => array( 'species' => 'fve', 'common_name' => 'Fragaria vesca', 'tax_id' => '57918', 'version' => 'V4.0.a2' ), 'fan' => array( 'species' => 'fan', 'common_name' => 'Fragaria x ananassa', 'tax_id' => '3747', 'version' => 'V1.0.a1' ), 'gma' => array( 'species' => 'gma', 'common_name' => 'Glycine max', 'tax_id' => '3847', 'version' => 'JGI Wm82.a4.v1' ), 'ghi' => array( 'species' => 'ghi', 'common_name' => 'Gossypium hirsutum', 'tax_id' => '3635', 'version' => 'v2.1' ), 'gra' => array( 'species' => 'gra', 'common_name' => 'Gossypium raimondii', 'tax_id' => '29730', 'version' => 'v2.1' ), 'han' => array( 'species' => 'han', 'common_name' => 'Helianthus annuus', 'tax_id' => '4232', 'version' => 'r1.2' ), 'hma' => array( 'species' => 'hma', 'common_name' => 'Hydrangea macrophylla', 'tax_id' => '23110', 'version' => 'v2.1' ), 'lsa' => array( 'species' => 'lsa', 'common_name' => 'Lactuca sativa', 'tax_id' => '4236', 'version' => 'v8.0' ), 'lonja' => array( 'species' => 'lonja', 'common_name' => 'Lonicera japonica', 'tax_id' => '105884', 'version' => 'v1.0' ), 'lja' => array( 'species' => 'lja', 'common_name' => 'Lotus japonicus', 'tax_id' => '34305', 'version' => 'Lj1.0v1' ), 'lal' => array( 'species' => 'lal', 'common_name' => 'Lupinus albus', 'tax_id' => '3870', 'version' => 'v1.0' ), 'mbi' => array( 'species' => 'mbi', 'common_name' => 'Magnolia biondii', 'tax_id' => '86725', 'version' => 'v1.0' ), 'mdo' => array( 'species' => 'mdo', 'common_name' => 'Malus domestica', 'tax_id' => '3750', 'version' => 'GDDH13 v1.1' ), 'mes' => array( 'species' => 'mes', 'common_name' => 'Manihot esculenta', 'tax_id' => '3983', 'version' => 'v8.1' ), 'mpo' => array( 'species' => 'mpo', 'common_name' => 'Marchantia polymorpha', 'tax_id' => '3197', 'version' => 'JGI v3.1' ), 'mtr' => array( 'species' => 'mtr', 'common_name' => 'Medicago truncatula', 'tax_id' => '3880', 'version' => 'JGI Mt4.0v1' ), 'mco' => array( 'species' => 'mco', 'common_name' => 'Micromonas commoda', 'tax_id' => '296587', 'version' => 'JGI v3.0' ), 'nnu' => array( 'species' => 'nnu', 'common_name' => 'Nelumbo nucifera', 'tax_id' => '4432', 'version' => 'v2.0' ), 'nta' => array( 'species' => 'nta', 'common_name' => 'Nicotiana tabacum', 'tax_id' => '4097', 'version' => 'Edwards2017' ), 'oeu' => array( 'species' => 'oeu', 'common_name' => 'Olea europaea', 'tax_id' => '4146', 'version' => 'v1.0' ), 'osa' => array( 'species' => 'osa', 'common_name' => 'Oryza sativa ssp. japonica', 'tax_id' => '39947', 'version' => 'IRGSP-1.0-2021-05-10' ), 'pso' => array( 'species' => 'pso', 'common_name' => 'Papaver somniferum', 'tax_id' => '3469', 'version' => 'ASM357369v1' ), 'pax' => array( 'species' => 'pax', 'common_name' => 'Petunia axillaris', 'tax_id' => '33119', 'version' => 'Sol Genomics v1.6.2' ), 'pvu' => array( 'species' => 'pvu', 'common_name' => 'Phaseolus vulgaris', 'tax_id' => '3885', 'version' => 'v2.1' ), 'ppa' => array( 'species' => 'ppa', 'common_name' => 'Physcomitrium patens', 'tax_id' => '3218', 'version' => 'JGI v3.3' ), 'psa' => array( 'species' => 'psa', 'common_name' => 'Pisum sativum', 'tax_id' => '3888', 'version' => 'V1.0a' ), 'ptr' => array( 'species' => 'ptr', 'common_name' => 'Populus trichocarpa', 'tax_id' => '3694', 'version' => 'JGI v4.1' ), 'pco' => array( 'species' => 'pco', 'common_name' => 'Prasinoderma coloniale', 'tax_id' => '156133', 'version' => 'v1.0' ), 'ppe' => array( 'species' => 'ppe', 'common_name' => 'Prunus persica', 'tax_id' => '3760', 'version' => 'v2.1' ), 'pgr' => array( 'species' => 'pgr', 'common_name' => 'Punica granatum', 'tax_id' => '22663', 'version' => 'ASM765513v2' ), 'qlo' => array( 'species' => 'qlo', 'common_name' => 'Quercus lobata', 'tax_id' => '97700', 'version' => 'v3.0' ), 'rsi' => array( 'species' => 'rsi', 'common_name' => 'Rhododendron simsii', 'tax_id' => '118357', 'version' => 'v1.0' ), 'rch' => array( 'species' => 'rch', 'common_name' => 'Rosa chinensis', 'tax_id' => '74649', 'version' => 'v2.0' ), 'sbr' => array( 'species' => 'sbr', 'common_name' => 'Salix brachista', 'tax_id' => '2182728', 'version' => 'v1.0' ), 'sbo' => array( 'species' => 'sbo', 'common_name' => 'Salvia bowleyana', 'tax_id' => '424416', 'version' => 'v1.0' ), 'shi' => array( 'species' => 'shi', 'common_name' => 'Sapria himalayana', 'tax_id' => '289637', 'version' => 'v1.0' ), 'spa' => array( 'species' => 'spa', 'common_name' => 'Schrenkiella parvula', 'tax_id' => '98039', 'version' => 'v2.2' ), 'sed' => array( 'species' => 'sed', 'common_name' => 'Sechium edule', 'tax_id' => '184140', 'version' => 'v1.0' ), 'smo' => array( 'species' => 'smo', 'common_name' => 'Selaginella moellendorffii', 'tax_id' => '88036', 'version' => 'v1.0' ), 'sun' => array( 'species' => 'sun', 'common_name' => 'Selenicereus undatus', 'tax_id' => '176265', 'version' => 'v1.0' ), 'sgi' => array( 'species' => 'sgi', 'common_name' => 'Sequoiadendron giganteum', 'tax_id' => '99814', 'version' => 'V2.0' ), 'sci' => array( 'species' => 'sci', 'common_name' => 'Simmondsia chinensis', 'tax_id' => '3999', 'version' => 'sc1' ), 'sly' => array( 'species' => 'sly', 'common_name' => 'Solanum lycopersicum', 'tax_id' => '4081', 'version' => 'ITAG4.0' ), 'spe' => array( 'species' => 'spe', 'common_name' => 'Solanum pennellii', 'tax_id' => '28526', 'version' => 'V2.0' ), 'stu' => array( 'species' => 'stu', 'common_name' => 'Solanum tuberosum', 'tax_id' => '4113', 'version' => 'JGI v4.03' ), 'sas' => array( 'species' => 'sas', 'common_name' => 'Striga asiatica', 'tax_id' => '4170', 'version' => 'v2.02' ), 'tha' => array( 'species' => 'tha', 'common_name' => 'Tarenaya hassleriana', 'tax_id' => '28532', 'version' => 'RefSeq v1' ), 'tca' => array( 'species' => 'tca', 'common_name' => 'Theobroma cacao', 'tax_id' => '3641', 'version' => 'V2.1' ), 'tpr' => array( 'species' => 'tpr', 'common_name' => 'Trifolium pratense', 'tax_id' => '57577', 'version' => 'V2.0' ), 'twi' => array( 'species' => 'twi', 'common_name' => 'Tripterygium wilfordii', 'tax_id' => '458696', 'version' => 'ASM1340144v1' ), 'tar' => array( 'species' => 'tar', 'common_name' => 'Trochodendron aralioides', 'tax_id' => '4407', 'version' => 'v1.0' ), 'ugi' => array( 'species' => 'ugi', 'common_name' => 'Utricularia gibba', 'tax_id' => '13748', 'version' => 'v1.1F' ), 'vma' => array( 'species' => 'vma', 'common_name' => 'Vaccinium macrocarpon', 'tax_id' => '13750', 'version' => 'V1.0' ), 'vpl' => array( 'species' => 'vpl', 'common_name' => 'Vanilla planifolia', 'tax_id' => '51239', 'version' => 'Elo Vpla-A Principal v1.0' ), 'vmu' => array( 'species' => 'vmu', 'common_name' => 'Vigna mungo', 'tax_id' => '3915', 'version' => 'ASM1342719v1' ), 'vvi' => array( 'species' => 'vvi', 'common_name' => 'Vitis vinifera', 'tax_id' => '29760', 'version' => 'Genoscope.12x' ), 'zma' => array( 'species' => 'zma', 'common_name' => 'Zea mays', 'tax_id' => '4577', 'version' => 'NAM v5.0' ) ) $allow_async_use = true $sidebar_information = array( 'type' => 'gf', 'id' => 'HOM05D001058' ) $data_identifier = 'HOM05D001058' $data_type = 'gf_id' $species_gene_counts = array( 'bna' => (int) 10, 'aar' => (int) 3, 'ach' => (int) 8, 'amhyb' => (int) 3, 'aly' => (int) 5, 'aox' => (int) 2, 'arhy' => (int) 11, 'ath' => (int) 3, 'atr' => (int) 3, 'acertr' => (int) 5, 'cqu' => (int) 6, 'bca' => (int) 7, 'bol' => (int) 4, 'bra' => (int) 5, 'can' => (int) 12, 'cansat' => (int) 4, 'chi' => (int) 3, 'cru' => (int) 3, 'car' => (int) 5, 'cbr' => (int) 3, 'ccan' => (int) 6, 'cde' => (int) 5, 'cfa' => (int) 5, 'ccl' => (int) 6, 'cil' => (int) 7, 'cla' => (int) 4, 'col' => (int) 5, 'cpa' => (int) 5, 'cre' => (int) 1, 'csa' => (int) 4, 'camsi' => (int) 7, 'dca' => (int) 4, 'din' => (int) 11, 'dzi' => (int) 9, 'eca' => (int) 8, 'bvu' => (int) 3, 'egr' => (int) 5, 'fan' => (int) 16, 'fve' => (int) 4, 'gma' => (int) 10, 'ghi' => (int) 14, 'gra' => (int) 7, 'vvi' => (int) 4, 'han' => (int) 9, 'cav' => (int) 3, 'hma' => (int) 4, 'vpl' => (int) 2, 'sun' => (int) 3, 'lal' => (int) 6, 'lonja' => (int) 7, 'lja' => (int) 7, 'lsa' => (int) 9, 'mes' => (int) 11, 'mpo' => (int) 1, 'mbi' => (int) 2, 'mco' => (int) 1, 'mdo' => (int) 11, 'mtr' => (int) 6, 'cme' => (int) 3, 'egut' => (int) 6, 'ama' => (int) 6, 'nta' => (int) 13, 'nnu' => (int) 5, 'oeu' => (int) 8, 'osa' => (int) 6, 'pax' => (int) 6, 'pgr' => (int) 5, 'stu' => (int) 5, 'pvu' => (int) 5, 'ptr' => (int) 8, 'ppa' => (int) 2, 'pco' => (int) 1, 'ppe' => (int) 5, 'psa' => (int) 5, 'pso' => (int) 3, 'qlo' => (int) 7, 'rch' => (int) 13, 'rsi' => (int) 8, 'sbr' => (int) 17, 'sbo' => (int) 8, 'sci' => (int) 3, 'sed' => (int) 5, 'sgi' => (int) 1, 'sas' => (int) 4, 'smo' => (int) 2, 'sly' => (int) 6, 'spe' => (int) 6, 'spa' => (int) 3, 'tar' => (int) 5, 'tha' => (int) 3, 'tca' => (int) 7, 'esa' => (int) 3, 'tpr' => (int) 14, 'twi' => (int) 6, 'ugi' => (int) 5, 'vma' => (int) 7, 'vmu' => (int) 6, 'zma' => (int) 8 ) $gf_gene_species = 'zma' $gf_gene_id = 'Zm00001eb392470' $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